Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Network Type I Analysis

Type 1 network in which we propagated the absolute log regulation ratio abs(log(r/g)). We used the filtered lowest boundary of the confidence interval for the microarray measurement based and used the high confidence interaction map. Because type-I networks tend to favour highly connected proteins we tested a normalisation scheme in which we would run the network once with real values (the measured column) and once with simulated values where each measured point is set to 1 instead of the actual signal (the expected column). Afterwards we divided the measured value by the expected value. This normalisation scheme works to a certain extend but will lead to a variance that is directly related to the connectivity of each protein. In the end we dropped the use of Type-I networks due to the many technical problems they pose.


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description Rank Gene measured expected final Hugo
Results: HTML CSV LaTeX Showing element 1051 to 1100 of 3206 in total
description
Rank
measured
expected
final
Hugo
ADENOVIRUS 5 E1A-BINDING PROTEIN (BS69 PROTEIN). [SWISSPROT;Acc:Q15326] 789 0.0552487 0.210853 0.262024728 ZMYND11
ADENYLOSUCCINATE LYASE (EC 4.3.2.2) (ADENYLOSUCCINASE) (ASL) (ASASE). [SWISSPROT;Acc:P30566] 933 0.289435 1.12698 0.256823546 ADSL
ADENYLOSUCCINATE SYNTHASE-LIKE 1. [RefSeq;Acc:NM_152328] 2178 0.385887 1.7008 0.226885583 ADSSL1
ADENYLOSUCCINATE SYNTHETASE (EC 6.3.4.4) (IMP--ASPARTATE LIGASE) (ADSS) (AMPSASE). [SWISSPROT;Acc:P30520] 2179 0.334139 1.47327 0.226800926 ADSS
ADENYLYL CYCLASE-ASSOCIATED PROTEIN 1 (CAP 1). [SWISSPROT;Acc:Q01518] 1603 0.136076 0.567058 0.239968398 CAP1
ADENYLYL CYCLASE-ASSOCIATED PROTEIN 2 (CAP 2). [SWISSPROT;Acc:P40123] 1607 0.132388 0.551914 0.239870704 CAP2
ADHESION REGULATING MOLECULE 1 PRECURSOR (110 KDA CELL MEMBRANE GLYCOPROTEIN) (GP110). [SWISSPROT;Acc:Q16186] 1125 0.116452 0.464548 0.250678078 ADRM1
ADIPOCYTE PLASMA MEMBRANE-ASSOCIATED PROTEIN (BSCV PROTEIN). [SWISSPROT;Acc:Q9HDC9] 797 0.0870266 0.332147 0.262012302 C20orf3
ADIPONECTIN RECEPTOR 2. [RefSeq;Acc:NM_024551] 7 0.252763 0.428531 0.589835975 ADIPOR2
ADP-RIBOSYLATION FACTOR 1. [SWISSPROT;Acc:P32889] 486 0.384939 1.40333 0.274303977 ARF1
ADP-RIBOSYLATION FACTOR 3. [SWISSPROT;Acc:P16587] 481 0.224714 0.819215 0.274304059 ARF3
ADP-RIBOSYLATION FACTOR 4. [SWISSPROT;Acc:P18085] 488 0.106754 0.389182 0.274303539 ARF4
ADP-RIBOSYLATION FACTOR GTPASE ACTIVATING PROTEIN 1 (ADP-RIBOSYLATION FACTOR 1 GTPASE ACTIVATING PROTEIN) (ARF1 GAP) (ARF1-DIRECTED GTPASE- ACTIVATING PROTEIN) (GAP PROTEIN). [SWISSPROT;Acc:Q8N6T3] 2733 0.145697 0.709572 0.205330819 ARFGAP1
ADP-RIBOSYLATION FACTOR GTPASE-ACTIVATING PROTEIN 3 (ARF GAP 3). [SWISSPROT;Acc:Q9NP61] 491 0.0344618 0.125634 0.274303135 ARFGAP3
ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 1. [SWISSPROT;Acc:P40616] 1566 0.0394801 0.163824 0.240990941 ARL1
ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 3. [SWISSPROT;Acc:P36405] 1822 0.038359 0.163741 0.234266311 ARL3
ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 4. [SWISSPROT;Acc:P40617] 1549 0.0296714 0.122715 0.241791142 ARL4A
ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 7 (ADP-RIBOSYLATION FACTOR-LIKE PROTEIN LAK). [SWISSPROT;Acc:P56559] 1550 0.0364961 0.150941 0.241790501 no value
AF-6 PROTEIN. [SWISSPROT;Acc:P55196] 439 0.263953 0.953667 0.276776904 MLLT4
AFG3-LIKE PROTEIN 2 (EC 3.4.24.-) (PARAPLEGIN-LIKE PROTEIN). [SWISSPROT;Acc:Q9Y4W6] 993 0.282136 1.10619 0.255052025 AFG3L2
AFLATOXIN B1 ALDEHYDE REDUCTASE 1 (EC 1.-.-.-) (AFB1-AR 1) (ALDOKETOREDUCTASE 7). [SWISSPROT;Acc:O43488] 945 0.0621197 0.242271 0.256405843 AKR7A2
AFLATOXIN B1 ALDEHYDE REDUCTASE 2 (EC 1.-.-.-) (AFB1-AR 2). [SWISSPROT;Acc:O95154] 943 0.0645005 0.251556 0.256406128 AKR7A3
AH RECEPTOR-INTERACTING PROTEIN (AIP) (IMMUNOPHILIN HOMOLOG ARA9) (HBV-X ASSOCIATED PROTEIN 2). [SWISSPROT;Acc:O00170] 2048 0.052087 0.226516 0.229948436 AIP
ALANINE AMINOTRANSFERASE (EC 2.6.1.2) (GLUTAMIC--PYRUVIC TRANSAMINASE) (GPT) (GLUTAMIC--ALANINE TRANSAMINASE). [SWISSPROT;Acc:P24298] 2729 0.0967095 0.470166 0.205692245 GPT
ALANINE AMINOTRANSFERASE 2; GLUTAMIC-PYRUVATE TRANSAMINASE 2. [RefSeq;Acc:NM_133443] 2728 0.113234 0.550484 0.205698985 GPT2
ALANYL-TRNA SYNTHETASE (EC 6.1.1.7) (ALANINE--TRNA LIGASE) (ALARS). [SWISSPROT;Acc:P49588] 1862 0.321507 1.37786 0.23333793 AARS
ALCOHOL DEHYDROGENASE CLASS III CHI CHAIN (EC 1.1.1.1) (GLUTATHIONE- DEPENDENT FORMALDEHYDE DEHYDROGENASE) (EC 1.2.1.1) (FDH). [SWISSPROT;Acc:P11766] 2619 0.478004 2.27081 0.210499337 no value
ALPHA ADDUCIN (ERYTHROCYTE ADDUCIN ALPHA SUBUNIT). [SWISSPROT;Acc:P35611] 1460 0.183187 0.753661 0.243062862 ADD1
ALPHA CRYSTALLIN C CHAIN (SMALL STRESS PROTEIN-LIKE PROTEIN HSP22) (E2IG1) (PROTEIN KINASE H11). [SWISSPROT;Acc:Q9UJY1] 922 0.208436 0.808729 0.257732813 HSPB8
ALPHA ENOLASE (EC 4.2.1.11) (2-PHOSPHO-D-GLYCERATE HYDRO-LYASE) (NON- NEURAL ENOLASE) (NNE) (ENOLASE 1) (PHOSPHOPYRUVATE HYDRATASE). [SWISSPROT;Acc:P06733] 2218 0.0495777 0.220425 0.22491868 ENO1
ALPHA-1-ACID GLYCOPROTEIN 2 PRECURSOR (AGP 2) (OROSOMUCOID 2) (OMD 2). [SWISSPROT;Acc:P19652] 306 0.232016 0.784548 0.295732065 no value
ALPHA-ACTININ 1 (ALPHA-ACTININ CYTOSKELETAL ISOFORM) (NON-MUSCLE ALPHA-ACTININ 1) (F-ACTIN CROSS LINKING PROTEIN). [SWISSPROT;Acc:P12814] 351 1.53732 5.44319 0.282429972 ACTN1
ALPHA-ACTININ 2 (ALPHA ACTININ SKELETAL MUSCLE ISOFORM 2) (F-ACTIN CROSS LINKING PROTEIN). [SWISSPROT;Acc:P35609] 345 1.799 6.36689 0.282555533 ACTN2
ALPHA-ACTININ 4 (NON-MUSCLE ALPHA-ACTININ 4) (F-ACTIN CROSS LINKING PROTEIN). [SWISSPROT;Acc:O43707] 352 1.5119 5.35346 0.282415485 ACTN4
ALPHA-CENTRACTIN (CENTRACTIN) (CENTROSOME-ASSOCIATED ACTIN HOMOLOG) (ACTIN-RPV) (ARP1). [SWISSPROT;Acc:P42024] 1706 0.0967911 0.407134 0.237737698 ACTR1A
ALPHA-FETOPROTEIN ENHANCER BINDING PROTEIN (AT MOTIF-BINDING FACTOR) (AT-BINDING TRANSCRIPTION FACTOR 1). [SWISSPROT;Acc:Q15911] 1640 0.0721691 0.301896 0.239052853 ZFHX3
ALPHA-NAC PROTEIN. [SPTREMBL;Acc:Q9H009] 250 0.755644 2.42272 0.311899023 no value
ALPHA-PARVIN (CALPONIN-LIKE INTEGRIN-LINKED KINASE BINDING PROTEIN) (CH-ILKBP). [SWISSPROT;Acc:Q9NVD7] 2507 0.0405241 0.188688 0.214767765
ALPHA/BETA HYDROLASE DOMAIN CONTAINING PROTEIN 1 ISOFORM 2; LUNG ALPHA/BETA HYDROLASE PROTEIN 1. [RefSeq;Acc:NM_152870] 953 0.0261125 0.101841 0.256404591 ABHD1
ALPHA/BETA HYDROLASE DOMAIN CONTAINING PROTEIN 3; LUNG ALPHA/BETA HYDROLASE 3. [RefSeq;Acc:NM_138340] 944 0.0204392 0.0797142 0.25640601 ABHD3
AMIDOPHOSPHORIBOSYLTRANSFERASE PRECURSOR (EC 2.4.2.14) (GLUTAMINE PHOSPHORIBOSYLPYROPHOSPHATE AMIDOTRANSFERASE) (ATASE) (GPAT). [SWISSPROT;Acc:Q06203] 1687 0.214575 0.901215 0.238095238 PPAT
AMINOACYLASE-1 (EC 3.5.1.14) (N-ACYL-L-AMINO-ACID AMIDOHYDROLASE) (ACY-1). [SWISSPROT;Acc:Q03154] 1811 0.18122 0.773023 0.234430282 ACY1
AMINOADIPATE-SEMIALDEHYDE SYNTHASE; LYSINE-KETOGLUTARATE REDUCTASE /SACCHAROPINE DEHYDROGENASE; LYSINE-2-OXOGLUTARATE REDUCTASE; AMINOADIPIC SEMIALDEHYDE SYNTHASE. [RefSeq;Acc:NM_005763] 2510 0.0833117 0.387916 0.214767372 AASS
AMMECR1 PROTEIN. [RefSeq;Acc:NM_015365] 2177 0.0350787 0.154573 0.226939375 AMMECR1
AMP DEAMINASE 2 (EC 3.5.4.6) (AMP DEAMINASE ISOFORM L). [SWISSPROT;Acc:Q01433] 2986 0.138195 1 0.138195 AMPD2
AMYLOID BETA A4 PRECURSOR PROTEIN-BINDING FAMILY A MEMBER 1 (NEURON- SPECIFIC X11 PROTEIN) (NEURONAL MUNC18-1-INTERACTING PROTEIN 1) (MINT-1) (ADAPTER PROTEIN X11ALPHA). [SWISSPROT;Acc:Q02410] 2560 0.16418 0.766097 0.214307066 APBA1
AMYLOID BETA PRECURSOR PROTEIN-BINDING PROTEIN 1; AMYLOID PROTEIN-BINDING PROTEIN 1. [RefSeq;Acc:NM_003905] 2597 0.0719023 0.337743 0.212890571 APPBP1
ANAPHASE PROMOTING COMPLEX SUBUNIT 11 (HEPATOCELLULAR CARCINOMA ASSOCIATED RING FINGER PROTEIN) (HSPC214). [SWISSPROT;Acc:Q9NYG5] 2145 0.170664 0.749796 0.227613911 ANAPC11
ANAPHASE-PROMOTING COMPLEX SUBUNIT 10; ANAPHASE-PROMOTING COMPLEX 10. [RefSeq;Acc:NM_014885] 2384 0.078258 0.356213 0.219694396 ANAPC10
ANAPHASE-PROMOTING COMPLEX SUBUNIT 2; ANAPHASE-PROMOTING COMPLEX 2. [RefSeq;Acc:NM_013366] 2437 0.171257 0.788327 0.217241069 ANAPC2

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Hugo is the bloody hugo identifier as demanded by the BMC Bioinformatics idiots
- http://analysis.yellowcouch.org/